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@PHDTHESIS{Ning:17113,
      author       = {Ning, Jing},
      title        = {{A}pplication of functional gene arrays for monitoring
                      influences of plant/seasons on bacterial functions and
                      community structures in constructed wetland ({B}itterfeld,
                      {G}ermany)},
      volume       = {114},
      issn         = {1866-1793},
      school       = {RWTH Aachen},
      type         = {Dr. (Univ.)},
      address      = {Jülich},
      publisher    = {Forschungszentrum Jülich GmbH Zentralbibliothek, Verlag},
      reportid     = {PreJuSER-17113},
      isbn         = {978-3-89336-724},
      series       = {Schriften des Forschungszentrums Jülich : Energie $\&$
                      Umwelt / Energy $\&$ Environment},
      pages        = {XIV, 157 S.},
      year         = {2011},
      note         = {Record converted from VDB: 12.11.2012; RWTH Aachen, Diss.,
                      2011},
      abstract     = {With the increasing application of constructed wetlands
                      (CWs) around the world to improve water quality, it becomes
                      more and more important to gain details about microbial
                      ecology in this “black box”. In order to better
                      understand general relationships among bacterial community
                      structures, functions and environmental influencing factors
                      in CWs, soil samples taken from the planted and the
                      unplanted CWs in Bitterfeld (Germany), as well as those
                      taken in warm- and cold-seasons, were compared in this study
                      by using functional gene arrays (the GeoChip). In addition,
                      other assessment methods, such as chemical analyses,
                      fluorescent microscopic enumeration and PCRbased DGGE
                      ($\underline{D}$enaturing $\underline{G}$radient
                      $\underline{G}$el $\underline{E}$lectrophoresis) were also
                      applied to complete the conclusions obtained by using the
                      GeoChip. In general, this study consisted of two parts. The
                      first part focused on evaluations of suitable DNA
                      preparation procedures for functional gene arrays. The whole
                      genome amplification was taken out of the primary plan due
                      to biases in proportions of bacterial populations in DGGE
                      band patterns, which were observed not only among the
                      replications of the same DNA template but also between the
                      products with and without this treatment. While evaluating
                      procedure of DNA purification, the gel filtration column
                      failed to purify DNA extracts of our samples, probably due
                      to high amount of humic substances in the extracts. Among
                      the three DNA extraction kits compared in this study (e.g.
                      Bio101 FastDNA Spin Kit for Soil, UltraClean Soil DNA
                      Isolation Kit and PowerSoil DNA Isolation Kit), extracts of
                      the Bio101 were proved to be more suitable for the DGGE
                      analysis with respect to their purity, yield and
                      representativeness, while those of the PowerSoil showed
                      better results in the microarray analysis. In addition,
                      basing on the DNA extracts revealing different quantity and
                      purity indices (A260/280, A260/230 and A320), influences of
                      these indices on subsequent assessment methods of microbial
                      communities (e.g. PCR-based DGGE and functional gene arrays)
                      were also investigated. It was concluded that the success in
                      PCR performance and consequently also in the DGGE analysis
                      is more affected by the A260/280 and A320 values than by the
                      ratio A260/230, and conditionally by the DNA yield.
                      Moreover, the DGGE band pattern could also be affected by
                      the preferential extraction due to chemical agents applied
                      in the extraction. However, unlike the DGGE analysis, DNA
                      microarrays were more affected by the A260/230 and A320
                      values. Thus, the primary goal of DNA extraction to obtain
                      DNA extracts with the highest purity is not accurate enough
                      any more in the environmental studies applying various
                      analyzing methods. The performance of DNA extraction should
                      vary with the subsequent [...]},
      cin          = {IBG-3},
      cid          = {I:(DE-Juel1)IBG-3-20101118},
      pnm          = {Terrestrische Umwelt},
      pid          = {G:(DE-Juel1)FUEK407},
      typ          = {PUB:(DE-HGF)11 / PUB:(DE-HGF)3},
      url          = {https://juser.fz-juelich.de/record/17113},
}